Contacts of the helix formed by residues 32 - 61 (chain M) in PDB entry 6MZL
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLU 32 (chain M).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65I LYS* 6.1 2.7 - - + -
66I LEU 4.0 7.0 + - - +
67I THR* 5.8 2.6 - - - -
28K ASN* 5.6 4.5 + - - -
31M TYR* 1.3 79.9 - - - +
33M PRO* 1.3 74.0 - - + +
34M ARG* 4.2 13.5 + - - +
35M VAL* 3.3 25.7 - - + +
36M ILE* 3.3 25.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 33 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31M TYR 4.8 0.4 - - - +
32M GLU* 1.3 85.5 - - + +
34M ARG* 1.3 61.0 + - + +
36M ILE* 3.3 17.8 + - + +
37M ASN* 2.8 41.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 34 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68I THR* 4.7 4.3 - - + -
31K LEU* 4.7 16.2 - - - +
34K ARG* 4.5 17.1 - - - +
32M GLU* 3.3 12.7 - - + +
33M PRO* 1.3 79.2 - - + +
35M VAL* 1.3 61.8 + - + +
37M ASN* 3.3 8.3 + - + +
38M GLN* 2.9 55.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 35 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66I LEU* 3.3 31.2 - - + +
67I THR* 3.5 20.0 - - - +
68I THR* 3.4 30.0 - - + +
71I ILE* 3.7 18.8 - - + -
31M TYR* 5.7 1.1 - - + -
32M GLU* 3.3 31.2 - - + +
34M ARG* 1.3 76.3 - - + +
36M ILE* 1.3 57.6 + - + +
38M GLN* 3.4 2.3 + - - +
39M MET* 2.9 33.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 36 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16M ALA* 5.4 4.9 - - + +
19M MET* 3.4 41.7 - - + +
23M LEU* 3.8 27.1 - - + -
31M TYR* 3.9 19.3 - - + -
32M GLU 3.3 16.6 - - - +
33M PRO* 3.3 19.1 - - + +
35M VAL* 1.3 78.6 - - + +
37M ASN* 1.3 63.5 + - - +
39M MET* 3.2 7.0 - - - +
40M LEU* 3.0 24.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 37 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13M PRO* 6.0 1.9 - - - +
16M ALA* 5.1 8.7 - - - +
33M PRO* 2.8 31.8 + - - +
34M ARG* 3.3 8.5 + - + +
36M ILE* 1.3 80.9 - - - +
38M GLN* 1.3 62.1 + - + +
40M LEU* 3.2 21.8 + - + +
41M GLU* 3.0 33.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 38 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68I THR* 3.4 23.3 - - + +
34M ARG* 2.9 41.6 + - + +
35M VAL 4.0 2.9 - - - +
37M ASN* 1.3 76.5 - - + +
39M MET* 1.3 66.4 + - - +
41M GLU* 4.4 6.1 - - - +
42M PHE* 3.0 48.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 39 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47I ILE* 4.3 34.1 - - + +
50I ILE* 5.2 8.5 - - + -
51I ALA* 6.1 3.1 - - + +
71I ILE* 3.6 45.8 - - + -
19M MET* 3.8 15.7 - - + -
35M VAL* 2.9 18.9 + - + +
36M ILE* 3.2 10.8 - - - +
38M GLN* 1.3 75.6 - - - +
40M LEU* 1.3 56.3 + - - +
42M PHE* 3.9 3.1 - - - +
43M ALA* 2.9 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 40 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I LEU* 6.1 4.0 - - + -
15M ASP* 3.7 37.0 - - + +
16M ALA 4.4 1.6 - - - +
18M MET* 5.7 2.2 - - + -
19M MET* 3.6 35.7 - - + -
36M ILE* 3.0 14.5 + - + +
37M ASN* 3.2 28.7 + - - +
39M MET* 1.3 76.9 - - - +
41M GLU* 1.3 61.5 + - + +
43M ALA* 3.2 5.5 + - + +
44M PHE* 2.9 51.1 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 41 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37M ASN* 3.0 19.7 + - + +
38M GLN* 4.4 6.3 - - - +
40M LEU* 1.3 75.8 - - + +
42M PHE* 1.3 68.6 + - + +
44M PHE* 3.5 8.9 + - + +
45M ARG* 3.0 47.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 42 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75I LEU* 6.2 4.9 - - + -
60K THR* 6.2 4.5 - - + -
38M GLN* 3.0 42.0 + - + +
39M MET* 4.2 3.1 - - - +
41M GLU* 1.3 77.3 - - + +
43M ALA* 1.3 57.1 + - - +
45M ARG* 3.2 18.6 + - + +
46M TYR* 2.9 52.6 + + + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 43 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43I VAL* 4.5 3.3 - - + +
47I ILE* 3.7 34.1 - - + -
39M MET* 2.9 22.4 + - + +
40M LEU* 3.5 7.4 - - + +
42M PHE* 1.3 77.2 - - - +
44M PHE* 1.3 57.3 + - + +
46M TYR* 3.1 16.9 + - - +
47M VAL* 2.9 31.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 44 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I LEU* 3.8 20.2 - - + -
19I MET* 3.7 35.9 - - + -
22I VAL* 4.7 24.0 - - + -
15M ASP* 4.0 30.7 - - - -
40M LEU* 2.9 42.4 + - + +
41M GLU* 3.8 9.0 - - + +
43M ALA* 1.3 75.6 - - - +
45M ARG* 1.3 60.2 + - + +
47M VAL* 3.1 11.1 + - + +
48M THR* 2.9 31.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 45 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60K THR* 5.5 9.3 - - - +
41M GLU* 3.0 40.7 + - - +
42M PHE* 3.2 19.2 + - + +
44M PHE* 1.3 74.2 - - + +
46M TYR* 1.3 62.7 + - + +
48M THR* 2.5 28.7 + - + +
49M THR* 2.9 19.8 + - + +
197O MET* 5.2 11.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 46 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43I VAL* 5.8 3.1 - - + -
75I LEU* 4.1 30.7 - - + +
42M PHE* 2.9 46.7 + + + -
43M ALA* 3.1 12.1 + - - +
45M ARG* 1.3 77.5 - - - +
47M VAL* 1.3 56.3 + - + +
49M THR* 2.4 22.4 + - + +
50M ILE* 2.9 18.6 + - + +
78M ARG* 3.0 28.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 47 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I LEU* 6.2 1.1 - - + -
19I MET* 4.1 26.9 - - + +
22I VAL* 5.8 2.9 - - + -
39I LEU* 5.8 10.3 - - + -
40I THR* 6.5 0.2 - - - -
43I VAL* 3.7 32.8 - - + -
43M ALA 2.9 19.4 + - - +
44M PHE* 3.1 15.9 + - + +
46M TYR* 1.3 76.1 - - - +
48M THR* 1.3 58.6 + - + +
50M ILE* 3.1 16.0 + - + +
51M LEU* 2.9 42.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 48 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22I VAL* 4.2 26.2 - - + +
26I MET* 5.5 11.6 - - + +
44M PHE* 2.9 21.1 + - + +
45M ARG* 2.5 31.1 + - + +
47M VAL* 1.3 76.8 - - + +
49M THR* 1.3 59.0 + - - +
51M LEU* 3.1 16.3 + - + +
52M ASP* 2.8 35.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 49 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45M ARG* 2.9 17.1 + - + +
46M TYR* 2.4 16.4 + - + -
48M THR* 1.3 76.4 - - - +
50M ILE* 1.3 58.3 + - - +
52M ASP* 3.1 16.5 + - - +
53M ASP* 2.9 33.9 + - - +
78M ARG* 2.4 39.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 50 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39I LEU* 3.8 31.0 - - + -
42I GLU* 6.0 0.7 - - + +
43I VAL* 3.7 29.6 - - + -
46I ARG* 5.7 6.1 - - - +
46M TYR* 2.9 23.2 + - + +
47M VAL* 3.1 13.0 + - + +
49M THR* 1.3 77.0 + - - +
51M LEU* 1.3 57.3 + - + +
53M ASP* 3.2 11.2 + - - +
54M ALA* 2.9 26.8 + - + +
71M VAL* 6.0 1.8 - - + -
74M ALA* 4.8 15.9 - - + +
75M ILE* 5.5 9.4 - - + -
78M ARG* 3.3 19.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 51 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19I MET 5.1 1.8 - - - +
22I VAL* 4.8 2.0 - - + +
23I ALA* 3.7 35.2 - - + +
26I MET* 6.0 4.0 - - + -
28I ILE* 3.7 23.6 - - + +
31I ILE* 5.9 1.3 - - + -
36I CYS* 5.9 3.4 - - - -
39I LEU* 4.7 19.5 - - + -
47M VAL* 2.9 30.7 + - + +
48M THR* 3.1 23.8 + - + +
50M ILE* 1.3 75.9 - - + +
52M ASP* 1.3 60.2 + - - +
54M ALA* 3.2 11.3 + - + +
55M LYS* 2.9 33.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 52 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I MET* 4.8 12.3 - - - +
48M THR* 2.8 23.3 + - - +
49M THR* 3.3 22.8 - - - +
51M LEU* 1.3 75.7 - - - +
53M ASP* 1.3 62.5 + - - +
55M LYS* 3.2 23.6 + - - +
56M ILE* 3.0 36.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 53 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49M THR* 2.9 15.4 + - - +
50M ILE* 3.3 9.3 - - - +
52M ASP* 1.3 77.6 - - - +
54M ALA* 1.3 57.4 + - - +
56M ILE* 3.2 16.3 + - - +
57M TYR* 2.9 46.6 + - + -
70M ASP* 4.2 0.9 - - - -
74M ALA* 4.1 18.0 - - + +
78M ARG* 3.3 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 54 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I ILE* 5.6 1.6 - - + -
50M ILE* 2.9 13.9 + - + +
51M LEU* 3.2 19.7 + - + +
53M ASP* 1.3 73.8 - - - +
55M LYS* 1.3 59.0 + - - +
58M SER* 2.9 21.1 + - - -
66M VAL* 3.7 32.6 - - + +
70M ASP* 2.8 26.7 - - - +
71M VAL* 6.2 0.7 - - + -
74M ALA* 5.4 0.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 55 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I MET* 3.4 46.3 + - - +
27I GLY 4.7 1.5 + - - -
28I ILE* 3.6 42.8 - - + +
51M LEU* 2.9 18.0 + - - +
52M ASP* 3.3 19.3 + - - +
54M ALA* 1.3 76.0 - - - +
56M ILE* 1.3 58.3 + - + +
58M SER* 2.6 21.8 + - - -
59M SER* 2.9 17.2 + - - -
66M VAL* 5.4 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 56 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52M ASP* 3.0 26.9 + - + +
53M ASP* 3.2 18.3 + - - +
55M LYS* 1.3 77.7 - - + +
57M TYR* 1.3 67.0 + - + +
59M SER* 2.3 26.7 + - - -
60M HIS* 2.9 35.3 + - + +
118R LEU* 3.9 26.2 - - + -
121R GLU* 6.0 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 57 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53M ASP* 2.9 39.5 + - + -
56M ILE* 1.3 79.6 - - + +
58M SER* 1.3 63.4 + - - +
61M ALA* 3.3 7.1 + - - +
70M ASP* 3.2 23.5 - - - +
73M LEU* 3.6 37.9 - - + -
74M ALA* 5.2 5.8 - - + -
77M CYS* 5.3 1.6 - - + -
102R LEU* 4.1 9.9 - - + +
105R HIS* 2.6 49.6 + + - +
118R LEU* 3.6 27.8 - - + +
122R ARG* 2.3 41.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 58 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I ILE* 6.1 0.3 - - - +
54M ALA 2.9 17.1 + - - -
55M LYS* 2.6 26.2 + - - -
57M TYR* 1.3 79.6 - - - +
59M SER* 1.3 57.1 + - - +
61M ALA* 3.6 2.9 + - - -
62M LYS 3.0 6.1 + - - -
63M LYS* 2.9 40.4 + - - +
64M ALA 4.8 2.6 + - - -
65M THR 3.3 28.0 - - - -
66M VAL* 4.4 3.9 - - - +
70M ASP* 3.6 3.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 59 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55M LYS 2.9 12.9 + - - -
56M ILE* 2.3 30.4 + - - -
58M SER* 1.3 79.4 + - - +
60M HIS* 1.3 69.7 + - - +
62M LYS* 3.0 25.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 60 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56M ILE* 2.9 41.4 + - + +
59M SER* 1.3 82.8 + - - +
61M ALA* 1.3 59.0 + - - +
62M LYS* 3.2 13.2 - - - +
105R HIS* 3.4 19.5 - - + +
106R ARG* 3.4 25.1 - - - +
114R LYS* 4.7 25.1 + - + +
115R ASP* 6.1 0.4 - - - +
118R LEU* 3.8 31.0 - - + +
121R GLU* 5.1 4.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 61 (chain M).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57M TYR 3.3 17.5 + - - +
58M SER* 4.1 3.8 - - - +
60M HIS* 1.3 76.4 - - - +
62M LYS* 1.3 69.2 + - - +
63M LYS* 3.4 26.9 + - + +
67M ASP* 5.9 2.2 - - - +
105R HIS* 3.2 25.1 - - + +
106R ARG* 4.4 10.3 - - + +
----------------------------------------------------------
Back to top of page
A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il